Basic Information
VIS ID
TVIS44029924
Fusion event
HTLV-1-SCP2 integration
Validated
No
Detection method
HTS
Data source
Curated
Sample type
Nontumor
Disease
Not given
Quality evaluation
Normal
Reported year
2019
PubMed ID
30307560
Virus Sequence
Virus name
HTLV-1
Subtype
HTLV-1c
Reference genome
KF242506
Host Sequence
Chromosome
chr1
Cytoband
p32.3
Reference genome
NCBI36/hg18
Start
53215210/52976950 (Hg38)
End
53215210/52976950 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1B
Target gene
SCP2
miRNAs that regulate target gene
hsa-mir-769-5p ; hsa-mir-26b-5p ; hsa-mir-1260b ; hsa-mir-30a-3p ; hsa-mir-192-3p ; hsa-mir-30d-3p ; hsa-mir-30e-3p ; hsa-mir-511-3p ; hsa-mir-4703-3p ; hsa-mir-4776-3p ; hsa-mir-662 ; hsa-mir-622 ; hsa-mir-4762-5p ; hsa-mir-4733-5p
Nearest miRNA
hsa-mir-12136/Upstream/1140548; hsa-mir-101-1/Downstream/1077129;
Nearest TSS
ENST00000473358/Upstream/13309; ENST00000478274/Downstream/37978;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/48977, chr1-CpG: 106/Downstream/85042
Upstream sequence
TCTGCATCTGGGCGGAGCTTTCACAGAACTCCTCCCAGTGCCGTCCCCACTCTGGGTCACTTCACTAGAGTACCCTACTTCTTACTCCTGCCTGGAGACA
Downstream sequence
GACTGTCTCTTCTCTTGGAAAATGATGTGTTTTACTTCTTCTTGCAGGACTTCTACCTACTTTGGTGATTGCAATTGTATTTATTCATTAAACTGTGGCT
Reference
Turpin, J., et al. Impact of Hepatitis B Virus Coinfection on Human T-Lymphotropic Virus Type 1 Clonality in an Indigenous Population of Central Australia. J Infect Dis ,2019,219(4): 562-567.
Curate